PDB Entry (2xd5)
PDB ID: 2xd5 Resolution: 2.5 Å Exp. Method: X-RAY DIFFRACTION
PMID: - DOI: -
Protein
Protein Name: DD-transpeptidase
Uniprot ID/ACC: Q7CRA4 (Q7CRA4_STRR6) Organism: Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
Gene Symbol: pbp1b Gene ID: -
Protein Class: TRANSFERASE
Ligand
Ligand Name:   N-BENZOYL-D-ALANINE
Canonical SMILES:   C[C@@H](NC(=O)c1ccccc1)C(O)=O
Standard InChI:   InChI=1S/C10H11NO3/c1-7(10(13)14)11-9(12)8-5-3-2-4-6-8/h2-7H,1H3,(H,11,12)(H,13,14)/t7-/m1/s1
HET Code:   S2D PubChem:   91514
DrugBank:   DB08508 ChEMBL:   CHEMBL55771
Molecular Formula:   C10H11NO3 Mol. Weight:   193.0739 logP:   0.8895
HBD:   2 HBA:   2
#Rotatable Bonds:   3 TPSA:   66.4
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Acyl Substitution SER 460 B 12.86 - Carboxylic Acid
Binding Affinity
-